Luminescence detection method

ABSTRACT

A method of detecting an analyte is provided. The method includes providing a sample, a container  110  with a wall  115 , and a catalyst for a luminescent reaction. The wall includes a colored portion  115   b . The method further comprises forming a reaction in the container and detecting the presence or absence of light emitted from the reaction mixture in the container. Detecting light emitted from the container can comprise detecting light passing through the colored portion. The colored portion can be detected visually and the color can be associated with the identity of an analyte-specific reagent disposed in the container. Kits comprising the container and a catalyst for a luminescent reaction are also provided.

CROSS REFERENCE TO RELATED APPLICATIONS

This application is a divisional of U.S. Ser. No. 14/111,573, filed Oct.14, 2013 (now allowed), which is a national stage filing under 35 U.S.C.371 of PCT/US2012/034155, filed Apr. 19, 2012, which claims priority toU.S. Provisional Patent Application No. 61/478,251, filed Apr. 22, 2011,which is incorporated herein by reference in its entirety.

BACKGROUND

Laboratories often perform a variety of test procedures such as, forexample, tests to determine the presence or identity of an etiologicalagent. Each test may include an analyte-specific reagent (e.g., anenzyme substrate, a nucleic acid primer or probe, an antibody, amonoclonal antibody, or a receptor) that can detect the presence of aparticular microorganism in a sample.

Laboratory tests for etiological agents are frequently performed inindividual containers (e.g., tubes or microtubes). Additionally, it isnot uncommon to process a batch of tests at the same time to improve theefficiency of the laboratory operations. Because similar tests are oftenperformed in identical-appearing tubes, the laboratory technicians uselabels to distinguish tubes containing different sample materials and/oranalyte-specific reagents.

Labels are routinely applied to reaction tubes to identify the contentsof the tubes. The labels may be written on the tube or a correspondingcap. Permanent, waterproof ink is used to prevent the label from washingor rubbing off during handling. Alternatively, an adhesive label,bearing a description of the contents of the tube, is attached to thetube.

The labels often include a large amount of information related to thecontents of the tube (e.g., sample identity, date, the type of test orreagent-specific analyte, the operator). Bar-code labels are used insome instances, so that a relatively large amount of information can beincorporated into a relatively small label.

SUMMARY

In general, the invention relates to a method of detecting an analyte.In particular, the method is directed to the detection of the presenceof an analyte by detecting a light-emitting reaction. The method furtherrelates to a colored container that can be used in the method.Surprisingly, a variety of colored containers, which are visuallydistinguishable from each other, can be used in a detection method thatrequires the detection of light that passes through the colored walls ofthe container. Advantageously, the colored containers provideinstantaneous visual identification of at least one component of thereaction, thereby reducing the possibility of laboratory error.

In one aspect, the present disclosure provides a method of detecting ananalyte. The method can comprise providing a sample, a catalyst for aluminescent reaction, and a container; forming a reaction mixture in thecontainer; and detecting light emitted from the reaction mixture in thecontainer. The reaction mixture can comprise the sample and thecatalyst. The container can include at least one wall. At least aportion of the wall comprises a coloring agent.

In any of the above embodiments, the container can be adapted for use ina luminometer. In any of the above embodiments, forming a reactionmixture further can comprise forming a reaction mixture to facilitate aluminescent reaction. In any of the above embodiments, the portion canbe visibly-colored. In any of the above embodiments, detecting lightfrom the luminescent reaction further can comprise operably positioningthe container in a luminometer comprising a detector. In any of theabove embodiments, operably positioning the container further cancomprise positioning the container such that at least a part of theportion is positioned between the reaction mixture and the detector. Inany of the above embodiments, detecting light further can comprisequantifying an amount of light.

In any of the above embodiments, providing the catalyst further cancomprise providing a dry, rehydratable catalyst. In any of the aboveembodiments, providing a catalyst can comprise providing luciferase. Inany of the above embodiments, wherein providing the detection reagentand the container further can comprise providing the container with thecatalyst disposed therein.

In any of the above embodiments, the method further can compriseproviding an analyte-specific reagent. In any of the above embodiments,providing an analyte-specific detection reagent further can compriseproviding a polynucleotide. In any of the above embodiments, forming areaction mixture further can comprise forming a reaction mixture tofacilitate nucleic acid amplification. In any of the above embodiments,the color of the portion can be associated with the identity of theanalyte-specific reagent disposed in the container. In any of the aboveembodiments, the analyte can comprise DNA or RNA.

In any of the above embodiments, the coloring agent can comprise a redcoloring agent, a blue coloring agent, a yellow coloring agent, a greencoloring agent, a mixture of any two or more of the foregoing coloringagents or a combination of any two or more of the foregoing coloringagents.

In another aspect, the present disclosure provides a kit. The kit cancomprise a detection reagent and a container. The container can compriseat least one wall. At least a portion of the wall can comprise acoloring agent. The container can be adapted for use in a luminometer.

In any embodiment of the kit, the portion can be visibly-colored. In anyembodiment of the kit, the detection reagent can be an analyte-specificreagent. In any embodiment of the kit, the color of the portion can beassociated with the identity of the analyte-specific reagent. In anyembodiment, the kit further can comprise a cell lysis agent, RNApolymerase, or DNA polymerase. In any embodiment of the kit, the colorcan comprise red, yellow, blue, green, mixtures thereof, or combinationsthereof.

The terms “analyte”, as used herein, refers to various molecules (e.g.,a nucleotide, a nucleic acid a protein, an enzyme) or epitopes ofmolecules (e.g., different binding sites of a protein, a glycoprotein ora polysaccharide), or whole cells of a microorganism. The analyte may becharacteristic of a microorganism (i.e., bacterium, yeast, mold, orvirus) or a group of microorganisms of interest and, thus, the presenceof the analyte in a sample is indicative of the presence of themicroorganism in the sample.

The words “preferred” and “preferably” refer to embodiments of theinvention that may afford certain benefits, under certain circumstances.However, other embodiments may also be preferred, under the same orother circumstances. Furthermore, the recitation of one or morepreferred embodiments does not imply that other embodiments are notuseful, and is not intended to exclude other embodiments from the scopeof the invention.

The terms “comprises” and variations thereof do not have a limitingmeaning where these terms appear in the description and claims.

As used herein, “a,” “an,” “the,” “at least one,” and “one or more” areused interchangeably. Thus, for example, a container can be interpretedto mean “one or more” containers.

The term “and/or” means one or all of the listed elements or acombination of any two or more of the listed elements.

Also herein, the recitations of numerical ranges by endpoints includeall numbers subsumed within that range (e.g., 1 to 5 includes 1, 1.5, 2,2.75, 3, 3.80, 4, 5, etc.).

The above summary of the present invention is not intended to describeeach disclosed embodiment or every implementation of the presentinvention. The description that follows more particularly exemplifiesillustrative embodiments. In several places throughout the application,guidance is provided through lists of examples, which examples can beused in various combinations. In each instance, the recited list servesonly as a representative group and should not be interpreted as anexclusive list.

Additional details of these and other embodiments are set forth in theaccompanying drawings and the description below. Other features, objectsand advantages will become apparent from the description and drawings,and from the claims.

BRIEF DESCRIPTION OF DRAWINGS

FIG. 1 is a side view of one embodiment of a container with a portioncomprising a coloring agent, according to the present disclosure.

FIG. 2A is an exploded cross-sectional schematic view of one embodimentof a container with a portion comprising a coloring agent and aluminescence reader, according to the present disclosure.

FIG. 2B is a cross-sectional schematic view of the container of FIG. 2Aoperationally coupled with the luminescence reader of FIG. 2A.

FIG. 3 is a graph of a portion of the spectrum of light emitted fromluminescent reactions conducted in a clear container and a containercomprising a coloring agent.

DETAILED DESCRIPTION

A trend in laboratory testing is the use of microvolume tests. Thistrend is being driven by the expense of particular reagents (e.g.,enzymes, enzyme reagents, dyes, monoclonal antibodies) and thedevelopment of sample preparation technology that can concentrateanalyte molecules into very small volumes, thereby enhancing thekinetics of detection reactions. Furthermore, there is a trend towardusing a particular instrument (e.g., a real-time PCR thermocycler) toperform a large number of tests, many of which include analyte-specificreagents (i.e. primers and/or probes). Such instruments often usestandardized containers (e.g., microtubes) in which all of the tests areconducted. Because the standardized containers appear identical,laboratory technicians depend on the use of labels to distinguish thecontents of each container.

The labels can be used to record a variety of important informationrelated to the contents of each container (e.g., sample identification,sample source, date, operator, type of test, analyte-specific reagents,lot numbers, and the like). Because the containers are so small, it canbe difficult to record all of the information on a label that will fiton the available surface area of the container and/or its cap. The useof bar-codes can associate a particular sample with a uniquecode/number, thereby permitting the technician to record large amountsof information associated with the bar-code. However, such codes mayonly be deciphered easily by a bar-code reader connected to a databasein which the information is stored, making it difficult for a technicianinstantly to visually recognize important attributes of the contents ofany given container.

Another drawback associated with the use of labels is that they canobscure a portion or all of the walls or cap of a container in which thetest is conducted. This can be a problem for tests that require opticaldetection of a reaction occurring in the container (e.g., a reaction inwhich the emission of light by luminescence is the basis for detectingthe presence or absence of an analyte). The label may substantiallyabsorb light from a luminescent reaction, as the light is passing out ofthe container on a path toward an optical detector (e.g. aphotomultiplier a photodiode, a charge-coupled device (CCD), acomplementary metal-oxide-semiconductor (CMOS), a semiconductor,photographic film) and/or as the light is passing toward a reflectivesurface intended to direct the light toward the optical detector,thereby reducing the potential sensitivity of the detection system.

Thus, there are at least two problems encountered by a technician whoattempts to perform a luminescence-based assay in a microcontainer: i)marking a particular microcontainer such that one or more criticalcomponent contained in the microcontainer is easily and instantlyrecognizable by a technician or an instrument and ii) avoidingsubstantial interference by the mark with the optical detection of areaction in the microcontainer. The inventive method provides a means tomark a container in a way that, even though the means absorbs light andlies directly in the path between a luminescent reaction and aphotodetector, surprisingly, it does not substantially interfere withthe detection of the luminescent reaction. Without being bound bytheory, it is believed that a human observer easily detects the color ofthe tube because the observer typically is visually detecting light(from a source external to the microcontainer) that passes through atleast two layers (e.g., walls) of the colored material. Thus, apparentabsorbance of the external light is at least doubled when detected bythe human eye. In contrast, light emitted by a luminescent reactionwithin the microcontainer only passes through one wall as it istraveling on a path to the detector. Advantageously, this permits easyvisible detection of the tube color with relatively little interference(i.e., absorbance) of the light emitted from a reaction in themicrocontainer.

The method comprises providing a sample, a detection reagent, and acontainer. The container includes at least one wall that forms anopening and an interior reservoir. The sample can be suspected ofcomprising an analyte (e.g., an analyte associated with a particularmicroorganism or group of microorganisms). Microorganisms of particularinterest include prokaryotic and eukaryotic organisms, particularly Grampositive bacteria, Gram negative bacteria, fungi, protozoa, mycoplasma,yeast, viruses, and even lipid-enveloped viruses. Particularly relevantorganisms include members of the family Enterobacteriaceae, or thefamily Micrococcaceae or the genera Staphylococcus spp., Streptococcusspp., Pseudomonas spp., Enterococcus spp., Salmonella spp., Legionellaspp., Shigella spp. Yersinia spp., Enterobacter spp., Escherichia spp.,Bacillus spp., Listeria spp., Vibrio spp., Corynebacteria spp. as wellas herpes virus, Aspergillus spp., Fusarium spp., and Candida spp.Particularly virulent organisms include Staphylococcus aureus (includingresistant strains such as Methicillin Resistant Staphylococcus aureus(MRSA)), S. epidermidis, Streptococcus pneumoniae, S. agalactiae, S.pyogenes, Enterococcus faecalis, Vancomycin Resistant Enterococcus(VRE), Vancomycin Resistant Staphylococcus aureus (VRSA), VancomycinIntermediate-resistant Staphylococcus aureus (VISA), Bacillus anthracis,Pseudomonas aeruginosa, Escherichia coli, Aspergillus niger, A.fumigatus, A. clavatus, Fusarium solani, F. oxysporum, F.chlamydosporum, Listeria monocytogenes, Listeria ivanovii, Vibriocholera, V. parahaemolyticus, Salmonella cholerasuis, S. typhi, S.typhimurium, Candida albicans, C. glabrata, C. krusei, Enterobactersakazakii, E. coli O157 and multiple drug resistant Gram negative rods(MDR).

Gram positive and Gram negative bacteria are of particular interest. Ofeven more interest are Gram positive bacteria, such as Staphylococcusaureus. Typically, these can be detected by detecting the presence of acell-wall component characteristic of the bacteria, such as a cell-wallprotein. Also, of particular interest are antibiotic resistant microbesincluding MRSA, VRSA, VISA, VRE, and MDR. Typically, these can bedetected by additionally detecting the presence of an internal cellcomponent, such as a membrane protein, transport protein, enzyme, etc.,responsible for antibiotic resistance.

In some embodiments, the analyte may be a biomolecule that is a reactantfor a luminescent reaction (e.g., ATP, luciferase). In some embodiments,the analyte may be a biomolecule (e.g., a nucleic acid) thatparticipates in a reaction or in a series of reactions that generate areactant for a luminescent reaction. A nonlimiting example of a seriesof reactions that generate a reactant for a luminescent reaction inresponse to the presence of a specific nucleic acid analyte is theLAMP-BART assay described by Gandelman et al. (“Novel BioluminescentQuantitative Detection of Nucleic Acid Amplification in Real-Time”,2010, Plos ONE, volume 5 (11), article e14155, published atwww.plosone.org in November 2010).

FIG. 1 shows one embodiment of a container 110 according to the presentdisclosure. The container 110 comprises a unitary wall 115 that forms anopening 120 and an interior reservoir 130. Optionally, a cap (not shown)may be used to seal the opening 120. The container 110 is adapted foruse in a luminometer. “Adapted for use in a luminometer”, as usedherein, means the container 110 has a shape and dimensions that permitit to be received in a luminometer so that light emitted from thecontainer, or contents (e.g., a reaction mixture) therein, can bedetected and, optionally, measured by the luminometer. In anyembodiment, the container 110 is configured (i.e., has a suitable sizeand shape) to be received in a thermal transfer device that is operablycoupled to a light-detecting detector, as shown in FIGS. 2A-B, forexample. Accordingly, in these embodiments, light emitted from thecontainer 110, or contents therein, can be received by thelight-detecting detector while, simultaneously, the temperature of thecontainer and contents therein is optionally controlled and/or modulatedby the thermal transfer device.

The container 110 can be fabricated from a material (e.g., glass;polymeric materials such as polyethylene, polypropylene, for example)having an optical clarity and optical transmissivity that does notsubstantially prevent light (e.g. visible wavelengths of light from aluminescent reaction) from passing through the wall 115 to alight-detecting detector. In some embodiments, the container can be atest tube, a reaction tube, or a microcentrifuge tube. The 20/20^(n)Single Tube Luminometer, available from Turner Biosystems (Sunnyvale,Calif.), includes a sample adapter that permits the use of 1.5 mLmicrocentrifuge tubes in the luminometer, for example.

The wall 115 of the container 110 further comprises a portion 115 b thatincludes a coloring agent. In some embodiments (not shown), the portionthat includes a coloring agent may be the cap, wherein the lightdetected from a luminescent reaction in the tube is detected after thelight has passed through the cap. In some embodiments, the coloringagent can be detected using an instrument (e.g., using aspectrophotometer). In preferred embodiments, color associated with theportion 115 b of the wall 115 comprising the coloring agent can bedetected visually. The portion can include any detectable fraction ofthe surface area of the wall 115. In some embodiments, the portioncomprises up to about 1 percent of the surface area of the wall. In someembodiments, the portion comprises up to about 2 percent of the surfacearea of the wall. In some embodiments, the portion comprises up to about5 percent of the surface area of the wall. In some embodiments, theportion comprises up to about 10 percent of the surface area of thewall. In some embodiments, the portion comprises up to about 15 percentof the surface area of the wall. In some embodiments, the portioncomprises up to about 20 percent of the surface area of the wall. Insome embodiments, the portion comprises up to about 30 percent of thesurface area of the wall. In some embodiments, the portion comprises upto about 40 percent of the surface area of the wall. In someembodiments, the portion comprises up to about 50 percent of the surfacearea of the wall. In some embodiments, the portion comprises up to about60 percent of the surface area of the wall. In some embodiments, theportion comprises up to about 70 percent of the surface area of thewall. In some embodiments, the portion comprises up to about 80 percentof the surface area of the wall. In some embodiments, the portioncomprises up to about 90 percent of the surface area of the wall. Insome embodiments, the portion comprises up to about 95 percent of thesurface area of the wall. In some embodiments, the portion comprises upto about 99 percent of the surface area of the wall. In someembodiments, the portion comprises up to the entire surface area of thewall. In some embodiments, the portion comprises at least about 1percent of the surface area of the wall. In some embodiments, theportion comprises at least about 2 percent of the surface area of thewall. In some embodiments, the portion comprises at least about 5percent of the surface area of the wall. In some embodiments, theportion comprises at least about 10 percent of the surface area of thewall. In some embodiments, the portion comprises at least about 15percent of the surface area of the wall. In some embodiments, theportion comprises at least about 20 percent of the surface area of thewall. In some embodiments, the portion comprises at least about 30percent of the surface area of the wall. In some embodiments, theportion comprises at least about 40 percent of the surface area of thewall. In some embodiments, the portion comprises at least about 50percent of the surface area of the wall. In some embodiments, theportion comprises at least about 60 percent of the surface area of thewall. In some embodiments, the portion comprises at least about 70percent of the surface area of the wall. In some embodiments, theportion comprises at least about 80 percent of the surface area of thewall. In some embodiments, the portion comprises at least about 90percent of the surface area of the wall. In some embodiments, theportion comprises at least about 95 percent of the surface area of thewall. In some embodiments, the portion comprises at least about 99percent of the surface area of the wall.

In some embodiments, the coloring agent is a pigment and/or a dyeincorporated into the material (e.g. glass, polymer resin) from whichthe container 110 is formed. Alternatively or additionally, in someembodiments (not shown) the container 110 further comprises a layer(e.g., a coating or a film layer) coupled to a surface (e.g., the innersurface or the outer surface) portion 115 b of the wall 115. The layercan comprise a coloring agent. The coloring agent can comprise a redcoloring agent, a blue coloring agent, a yellow coloring agent, a greencoloring agent, a mixture of any two or more of the foregoing coloringagents or a combination of any two or more of the foregoing coloringagents.

As with the container 110, the portion 115 b of the wall 115 comprisingthe coloring agent has an optical clarity and optical transmissivitythat does substantially prevent the light (e.g. visible wavelengths oflight from a luminescent reaction) from passing through the portion 115b to a light-detecting detector. In a preferred embodiment, relative toa similar container that does not comprise a coloring agent, thecontainer comprising a portion 115 b having a coloring agent permits thetransmission of at least about 50% or more of the light emitted from aluminescent reaction. In a more preferred embodiment, relative to asimilar container that does not comprise a coloring agent, the containercomprising a portion 115 b having a coloring agent permits thetransmission of at least about 75% or more of the light emitted from aluminescent reaction. In a more preferred embodiment, relative to asimilar container that does not comprise a coloring agent; the containercomprising a portion 115 b having a coloring agent permits thetransmission of at least about 85% or more of the light emitted from aluminescent reaction. In a more preferred embodiment, relative to asimilar container that does not comprise a coloring agent; the containercomprising a portion 115 b having a coloring agent permits thetransmission of at least about 90% or more of the light emitted from aluminescent reaction. In a more preferred embodiment, relative to asimilar container that does not comprise a coloring agent; the containercomprising a portion 115 b having a coloring agent permits thetransmission of at least about 95% or more of the light emitted from aluminescent reaction.

The opening 120 of the container 110 permits the transfer of materials(not shown) into the reservoir 130 of the container 110. The materialscan include liquid and/or solid materials to facilitate a luminescentreaction. Nonlimiting examples of suitable materials to facilitate aluminescent reaction include a liquid medium (e.g., water, a buffersolution), an enzyme (e.g., luciferase, alkaline-phosphatase), an enzymesubstrate (e.g., luciferin; ATP;2-chloro-5-(4-methoxyspiro[1,2-dioxetane-3,2′-(5-chlorotricyclo[3.3.1.1^(3.7)]decan])-4-yl]-1-phenylphosphate (CDP-STAR Chemiluminescent alkaline phosphatase reagentavailable from Sigma-Aldrich, St. Louis, Mo.)), a chemiluminescentreagent (e.g., luminol), and a cell lysis reagent (e.g., a detergent,TRITON X-100). The enzyme (e.g., alkaline phosphatase, luciferase) maybe coupled to a binding partner (e.g., a protein such as an antibody ora receptor, for example). Sample materials can also be transferred intothe reservoir 130 through the opening 120.

Sample materials include sample materials that are suspected ofcontaining an analyte. The sample material may be a liquid, a solid, asolid suspended or dispersed in a liquid, a hydrogel. In any of theembodiments, the sample may comprise microorganisms and/or moleculesthat have been subjected to one or more sample preparation techniquesincluding but not limited to concentration (e.g., by filtration,precipitation, agglomeration, centrifugation, absorption, and/oradsorption), amplification (e.g., growth-based and/or enzymaticamplification), enrichment (e.g., selective growth enrichment),extraction (e.g., cell lysis), and purification (e.g., chromatographicpurification, solvent partitioning).

Providing a catalyst for a luminescent reaction comprises providing asubstance that enables a luminescent reaction to proceed at a fasterrate or under different conditions (e.g., at a lower temperature) thanotherwise possible. In some embodiments, the catalyst is an enzyme suchas luciferase (e.g., firefly luciferase) or alkaline phosphatase, forexample. In some embodiments, the sample may comprise the catalyst. Insome embodiments, the catalyst can be provided in a dry, rehydratableform. In some embodiments, the dry, rehydratable catalyst can beprovided in the interior reservoir 115 of the container 110. In someembodiments, the catalyst may be provided in a separate container (notshown) and transferred to the interior reservoir 115. The catalyst maybe rehydrated and/or diluted with an aqueous liquid (e.g., water, abuffer).

The method further comprises forming a reaction mixture in thecontainer. The reaction mixture, when formed, comprises the catalyst fora luminescent reaction (e.g., luciferase) and the sample. The sample,either directly or indirectly, provides at least one reactant for theluminescent reaction. For example, in some embodiments, the sample maycomprise cells or a cell lysate that provides ATP as a reactant for abioluminescent reaction. Thus, in some embodiments, forming a reactionmixture further comprises forming a reaction mixture comprising a celllysis agent (e.g., a detergent). In some embodiments, the sample maycomprise nucleic acid (DNA or RNA) which, in the presence of thedeoxyribonucleotide triphosphates and nucleic acid polymerase, canfacilitate a polymerization reaction to form DNA or RNA. Thepolymerization reaction also results in the production of pyrophosphate(P₂O₇ ⁴⁻) which, in the presence of adenosine monophosphate and ATPsulfurylase, can produce ATP, which can be used as a reactant for abioluminescent reaction as described in Gandelman et al. Thus, in someembodiments, forming a reaction mixture further comprises forming areaction mixture comprising to facilitate nucleic acid amplification. Insome embodiments, forming a reaction mixture comprises forming areaction mixture that includes nucleic acid precursors (e.g., dNTP's), anucleic acid polymerase, and an enzyme (e.g., ATP sulfurylase) that usespyrophosphate to produce a reactant (e.g., ATP) for a luminescentreaction.

Typically, forming a reaction mixture comprises placing the reactants influidic contact (e.g., in an aqueous fluid, such as an aqueous buffer,for example). The reaction mixture can be formed in the container 110,for example, by adding the reagents to the container either before orafter adding an aqueous fluid to the container 110. Alternatively, thereaction mixture can be formed in a separate container (not shown) and aportion or all of the reaction mixture can be transferred to thecontainer 110.

The method further comprises detecting the presence or absence of lightemitted from the container or from contents therein. In someembodiments, detecting the presence or absence of light emitted from thecontainer or light emitted from contents therein further comprisesdetecting light using a luminometer that includes a detector to detectlight. In these embodiments, the method further comprises operablypositioning the container in the luminometer such that light emittedfrom the container or light emitted from contents therein can bedetected by the detector. In some embodiments, operably positioning thecontainer in the luminometer further comprises positioning the containersuch that at least a part of the portion 115 b of the wall comprising acoloring agent is positioned between the reaction mixture and thedetector.

FIGS. 2A and 2B show one embodiment of a system 200 for detecting ananalyte. FIG. 2A shows a partially-exploded longitudinal cross-sectionalschematic view of the system 200 components. The system 200 includes acontainer 210 and a reader 240 that is similar to the diode-based devicedescribed by Gandelman et al. The container 210 comprises a wall 215 anda cap 218. The wall 215 includes a portion (e.g., the entire wall) thatcomprises a coloring agent. Disposed in the container 210 is a reactionmixture 230.

The reader 240 comprises a receiver 242 that includes a cavity 243configured to receive the container. The receiver 242 can be fabricatedfrom a variety of materials including, for example plastic or metal. Ina preferred embodiment, the receiver 242 is fabricated from aheat-conducting material (e.g., aluminum), which is operationallycoupled to a heat source (e.g., a resistor, not shown) and a temperaturecontroller (not shown). In the illustrated embodiment, the cavity isshaped and dimensioned such that the container 215, excluding the cap218, can be operationally coupled (i.e., fully and securely seated in)to the cavity 243 of the receiver 242.

Optionally, the reader 240 can comprise a light-collecting element 244.The light-collecting element 244 has a frustro-conical shape and isintended to collect light that is emitted from the container in adirection that is not toward the detector 248 and refract and/or reflectthe light in a direction (arrow “A”) that is toward the detector 248. Insome embodiments, the light-collecting element 244 can be a mirror-likesurface (e.g., a shaped, coated, and/or polished surface of the materialused to fabricate the receiver 242).

The detector 248 can be any detector capable of converting photonsignals (i.e., light) to electrical signals. Examples of suitabledetectors 248 include, for example, photomultiplier tubes andphotodiodes (e.g., avalanche photodiodes). The reader 240 furthercomprises a housing 260 and, optionally, a cover (not shown) tosubstantially exclude external light from the detector 248 when a sampleis being analyzed by the reader 240.

FIG. 2B shows a cross-sectional longitudinal cross-sectional schematicview of the system 200 of FIG. 2A with the container 210 operablypositioned in the reader 240. In the illustrated embodiment, because theentire wall comprises a coloring agent, operably positioning thecontainer 210 further comprises positioning the container 210 such thatat least a part of the colored portion of the wall 215 is positionedbetween the reaction mixture 230 and the detector 248.

In some embodiments, the reader 240 may be included in a luminometer.The luminometer can be a hand-held luminometer such as, for example, aLIGHTNING MVP System luminometer available from BioControl Systems,Inc., Bellevue, Wash. Alternatively, the luminometer can be a bench-topluminometer such as, for example, the 20/20^(n) Single Tube Luminometeror a luminometer similar to those described in Gandelman et al.

According to the present disclosure, detecting the presence or absenceof light emitted from the container is performed after forming thereaction mixture. The reaction mixture is configured such that theanalyte in the sample provides a component that, either directly orindirectly, enables the luminescent reaction. Thus, the presence oflight emitted from the container, or from contents (e.g., the reactionmixture) therein, after the reaction mixture is formed is an indicationof the presence of the analyte in the portion of the sample that istested. Conversely, the absence of light emitted from the container, orfrom contents therein, after the reaction mixture is formed is anindication of the absence of the analyte in the portion of the samplethat is tested.

In some embodiments, detecting the presence or absence of light emittedfrom the container, or from contents therein, further comprisesquantifying an amount of light emitted from the container. As usedherein, detecting and/or quantifying light emitted from the containermeans detecting and/or quantifying at least some light that is emittedby contents of the container (e.g., a reaction mixture) and that passesthrough a colored portion of the container. In some embodiments, most ofthe detected and/or quantified light has been emitted by the contents ofthe container and has passed through a colored portion of the container.

In any of the embodiments of the method, the method further can compriseproviding an analyte-specific reagent. In any of the embodiments, theanalyte-specific reagent can comprise an analyte-specific polynucleotide(e.g., a primer that can be used to facilitate nucleic acidamplification). In any of the embodiments, the analyte-specific reagentcan be provided (e.g., in a liquid medium or as a dehydrated reagent) inthe container. In any of the embodiments, the color of thecolored-portion of the container can be associated with the identity ofthe analyte-specific reagent provided in the container. Any color may beused to designate a container having an analyte-specific reagent. Forexample, a blue container may include an analyte-specific reagent todetect Escherichia coli, a yellow tube may include an analyte-specificreagent to detect Staphylococcus aureus, and/or a green tube may includean analyte-specific reagent to detect Campylobacter jejuni.

In another aspect, the present disclosure provides a kit to detect ananalyte. The kit can comprise a container as described herein. Thecontainer comprises at least one wall that forms an opening and aninterior reservoir. At least a portion of the wall comprises a coloringagent, as described herein. In some embodiments, the portion is visiblycolored. The container further is adapted for use in a luminometer. Thekit further comprises a catalyst for a luminescent reaction, asdescribed herein. In any embodiment, the catalyst can compriseluciferase, for example.

In any embodiment, the kit further can comprise an analyte-specificreagent. In any embodiment, the analyte specific reagent can comprise apolynucleotide or an antibody, for example.

In any embodiment, the kit further can comprise a reagent used toextract and/or purify nucleic acid from a cell. Non-limiting examples ofsuch reagents include a cell lysis reagent (e.g., a detergent, anenzyme, lysostaphin). In any embodiment, the kit further can include areagent used to facilitate the amplification of nucleic acid (e.g., RNApolymerase, DNA polymerase, a mixture of ribonucleotide triphosphates, amixture of deoxyribonucleotide triphosphates). In any embodiment, thekit further can include a reagent to facilitate the synthesis of ATP(e.g., ATP sulfurylase, adenosine monophosphate).

EMBODIMENTS

Embodiment A is a method of detecting an analyte, comprising:

-   -   providing a sample; a catalyst for a luminescent reaction; a        container that includes at least one wall;    -   wherein the container is adapted for use in a luminometer;    -   wherein at least a portion of the wall comprises a coloring        agent;

forming a reaction mixture in the container, the reaction mixturecomprising the sample and the catalyst; and

detecting the presence or absence of light emitted from the reactionmixture in the container.

Embodiment B is the method of embodiment A, wherein the container isadapted for use in a luminometer comprising a detector.

Embodiment C is the method of embodiment A or embodiment B, whereinforming a reaction mixture further comprises forming a reaction mixtureto facilitate a luminescent reaction.

Embodiment D is the method of any one of the preceding embodiments,wherein the portion is visibly-colored.

Embodiment E is the method of any one of embodiments B through D,wherein detecting light from the container further comprises operablypositioning the container in the luminometer.

Embodiment F is the method of embodiment E, wherein operably positioningthe container further comprises positioning the container such that atleast a part of the portion is positioned between the reaction mixtureand a detector.

Embodiment G is the method of any one of the preceding embodiments,wherein detecting light further comprises quantifying an amount oflight.

Embodiment H is the method of any one of the preceding embodiments,wherein providing the catalyst further comprises providing a dry,rehydratable catalyst.

Embodiment I is the method of any one of the preceding embodiments,wherein providing the catalyst comprises providing luciferase.

Embodiment J is the method of any one of the preceding embodiments,wherein providing the detection reagent and the container furthercomprises providing the container with the catalyst disposed therein.

Embodiment K is the method of any one of the preceding embodiments,further comprising providing an analyte-specific reagent.

Embodiment L is the method of embodiment K, wherein the color of theportion is associated with the identity of the analyte-specific reagentdisposed in the container.

Embodiment M is the method of embodiment K or embodiment L, whereinproviding an analyte-specific reagent further comprises providing ananalyte-specific polynucleotide.

Embodiment N is the method of any one of the preceding embodiments,wherein forming a reaction mixture further comprises forming a reactionmixture to facilitate nucleic acid amplification.

Embodiment O is the method of any one of the preceding embodiments,wherein the analyte-specific reagent comprises DNA, RNA, or anenzyme-labeled protein.

Embodiment P is the method of any one of the preceding embodiments,wherein the color agent comprises a red coloring agent, a yellowcoloring agent, a blue coloring agent, a green coloring agent, a mixtureof any two or more of the foregoing coloring agents, or a combination ofany two or more of the foregoing coloring agents.

Embodiment Q is a kit, comprising:

a catalyst for a luminescent reaction; and

a container comprising at least one wall;

wherein at least a portion of the wall comprises a coloring agent;

wherein the container is adapted for use in a luminometer.

Embodiment R is the kit of embodiment Q, wherein the portion isvisibly-colored.

Embodiment S is the kit of embodiment Q or embodiment R, furthercomprising an analyte-specific reagent.

Embodiment T is the kit of embodiment S, wherein the reagent is disposedin the container.

Embodiment U is the kit of embodiment S or embodiment T, wherein theanalyte-specific reagent comprises an analyte-specific polynucleotide.

Embodiment V is the kit of any one of embodiments S through U, whereinthe color of the portion is associated with the identity of theanalyte-specific reagent.

Embodiment W is the kit of any one of embodiments S through V, whereinthe catalyst comprises luciferase.

Embodiment X is the kit of any one of embodiments S through W, furthercomprising a cell lysis agent, RNA polymerase, DNA polymerase, or ATPsulfurylase.

The present invention is illustrated by the following examples. It is tobe understood that the particular examples, materials, amounts, andprocedures are to be interpreted broadly in accordance with the scopeand spirit of the invention as set forth herein.

EXAMPLES Materials

Microbial Luminescence System LL1 Reagent and Microbial LuminescenceSystem LL1 Buffer (both obtained from MLS L/L1 Replacement Kit, Catalog#3003B, available from 3M Health Care, St. Paul, Minn.)

Microbial Luminescence System (ATP) Positive Control (Catalog #3004; 3MHealth Care; St. Paul, Minn.)

Molecular Grade Water; Catalog No. W4502; Sigma Chemical Co., St. Louis,Mo. 0.2 mL PCR tubes (#34267.8S clear, #34267.8B blue, #34267.8G green,#34267.8Y yellow, #34267.8L lavender, modified blue*, modifiedlavender*); Biotix; San Diego, Calif. The part numbers refer to thestock PCR tubes from Biotix. However, it should be noted that themodified blue and the modified lavender tubes used in the Examples werespecial-ordered and were made by Biotix using one-half of the amount(relative to the stock tubes) of coloring agent that is normally used tomake the stock PCR tubes.Hygiena Snapshot 1515 Universal ATP Surface Test; Hygiena, Camarillo,Calif.BioControl Lightning MVP luminometer; BioControl Systems, Bellevue,Wash.

Comparative Example 1. Detection of Bioluminescence Using a ClearMicrotube

Reagents:

Microbial Luminescence System LL1 reagent was reconstituted using theLL1 buffer and swirled to mix according to the manufacturer'sinstructions. 1 mL of the molecular-grade water was used to reconstitutethe ATP Positive Control vial.

Construction of the hybrid devices: A 1-cm piece was cut off the bottomof SnapShot device tubes using a razor blade. Care was taken to ensurethat the cut was approximately perpendicular to the longitudinal axis ofthe tube. The cap (with the attached swab) was removed from the deviceand about 5 cm of the swab shaft (including the fibrous bud) was brokenoff. The (cut) tube was shaken to expel any moisture that was looselyadhered to the walls of the tube. Clear 0.2 mL PCR tubes were cut froman 8-tube strip and the open end of the PCR tube was inserted into thecut openings in the bottom of the SnapShot tubes. The PCR tubes wereinserted far enough into the SnapShot tubes so that about 1 cm of thePCR tubes extended out the bottom of the SnapShot tubes. The outerdiameter of the PCR tube and the inner diameter of the SnapShot tubewere of such similar dimensions that the PCR tube was firmly held inplace, forming a liquid-resistant seal in the hybrid devices.

The blank samples were analyzed by pipetting 100 μL of the LL1 reagentinto the clear PCR tube at the bottom of the hybrid devices, insertingthe hybrid devices into a BioControl Lightning MVP luminometer, andobtaining an RLU reading according to the manufacturer's instructions.The test samples were analyzed by pipetting 10 μL of the ATP solutioninto the hybrid device, followed by 100 μL of the LL1 reagent. Thesolutions were mixed using a micropipet and the hybrid devices wereinserted into a BioControl Lightning MVP luminometer to obtain an RLUreading according to the manufacturer's instructions. Five replicatedevices were tested with each of the blank and the test solutions. Itwas noted that all of the liquid for each reaction (i.e., blankreactions and test reactions) was held in the PCR tube portion of thehybrid device while the hybrid device was placed in the luminometer todetect light emitted from the tube. The results are shown in Table 1. Asan additional control, the empty hybrid devices (no LL1 Reagent and noATP solution) were placed into the luminometer and the RLU reading wasobtained.

Examples 1-4. Detection of Bioluminescence Using a Colored Microtube

Reagents and hybrid devices were prepared as described in ComparativeExample 1 except that the blue PCR tubes were used to construct thehybrid devices for Example 1, the green PCR tubes were used to constructthe hybrid devices for Example 2, the yellow PCR tubes were used toconstruct the hybrid devices for Example 3, and the lavender PCR tubeswere used to construct the hybrid devices for Example 4. The “blank” (noATP) and “test” RLU readings were obtained using the same methodsdescribed Comparative Example 1. The results are summarized in Table 1.

TABLE 1 Detection of a bioluminescent reaction using clear and coloredreaction tubes. All results are reported as Relative Light units(RLU's). Blank Test Comparative Example 1 236 198450 Comparative Example1 201 205621 Comparative Example 1 218 203080 Comparative Example 1 241187486 Comparative Example 1 244 203546 Ave. (Comp. Ex. 1) 228 199637Example 1 263 175896 Example 1 250 178749 Example 1 221 174281 Example 1227 187653 Example 1 228 190133 Ave. (Ex. 1) 238 181342 Example 2 213203855 Example 2 240 191118 Example 2 210 201122 Example 2 233 193094Example 2 226 199193 Ave. (Ex. 2) 224 197676 Example 3 266 199907Example 3 232 196112 Example 3 225 188401 Example 3 190 210654 Example 3209 202712 Ave. (Ex. 3) 224 199557 Example 4 204 178512 Example 4 217177304 Example 4 235 184201 Example 4 223 174188 Example 4 194 182196Ave. (Ex. 4) 215 179280

The results show that the amount of light detected using the coloredtubes ranged from about 89.9% (lavender tubes) to about 99.9% (yellowtubes) of the light detected using the clear tubes, even though thecolor of the tubes easily could be observed and identified by the humanoperator.

Example 5. Light Transmittance by Colored Microtubes

The transmittance of visible light by clear and colored PCR tubes wasmeasured using a spectrophotometer (model number 80-2097-62, LKBBiochrom, Cambridge, UK). Reference scans were made with an emptycuvette. Experimental scans were made using individual cuvettes thatcontained the respective clear and colored Biotex PCR tube discussedabove. FIG. 3 shows a comparison of the transmittance of 500-700 nmlight through a clear PCR tube (line “A”) and a modified lavender PCRtube (line “B”). Table 2 shows the results of an experiment where thetransmittance of 500 nm-700 nm light through each of the various-coloredPCR tubes was compared to the transmittance of light through a clear PCRtube. The experiment was performed as described above except that thereference scan was made using a cuvette containing a clear PCRmicrotube. Although all tubes transmitted at least 80% of the lighttransmitted by the clear tubes, the green, yellow, modified blue, andmodified lavender tubes transmitted at least 90% of the lighttransmitted by the clear tubes.

TABLE 2 Detection of a light transmission through colored reactiontubes. All results are reported as Relative Light units (RLU's). Lighttransmittance was measured in tubes from three different lots of eachstock PCR colored tube. Light transmittance was also measured in tubesfrom one lot each of the modified blue and modified lavender tubes. %Ave. Green Tube (lot A) 89 92 Green Tube (lot B) 97 Green Tube (lot C)91 Blue Tube (lot A) 83 89 Blue Tube (lot B) 94 Blue Tube (lot C) 92Yellow Tube (lot A) 97 98 Yellow Tube (lot B) 99 Yellow Tube (lot C) 98Lavender Tube (lot A) 83 84 Lavender Tube (lot B) 91 Lavender Tube (lotC) 80 Modified Blue Tube 98 Modified Lavender Tube 99

The complete disclosure of all patents, patent applications, andpublications, and electronically available material cited herein areincorporated by reference. In the event that any inconsistency existsbetween the disclosure of the present application and the disclosure(s)of any document incorporated herein by reference, the disclosure of thepresent application shall govern. The foregoing detailed description andexamples have been given for clarity of understanding only. Nounnecessary limitations are to be understood therefrom. The invention isnot limited to the exact details shown and described, for variationsobvious to one skilled in the art will be included within the inventiondefined by the claims.

All headings are for the convenience of the reader and should not beused to limit the meaning of the text that follows the heading, unlessso specified.

Various modifications may be made without departing from the spirit andscope of the invention. These and other embodiments are within the scopeof the following claims.

The invention claimed is:
 1. A kit, comprising: a catalyst; ananalyte-specific reagent; and a container comprising at least one wall,wherein a material from which at least a portion of the wall is formedincorporates a coloring agent for marking the container; wherein thecontainer is adapted for use in a luminometer, and wherein the portionof the wall comprising the coloring agent has an optical clarity andoptical transmissivity that does not substantially prevent from passingthrough the portion of the wall of the container visible wavelengths oflight that are products of a luminescent reaction in a reaction mixturecomprising the catalyst and the analyte-specific reagent when thecontainer contains the reaction mixture.
 2. The kit of claim 1, whereinthe portion of the wall is visibly-colored.
 3. The kit of claim 1,wherein the analyte-specific reagent is disposed in the container. 4.The kit of claim 1, wherein the analyte-specific reagent comprises ananalyte-specific polynucleotide.
 5. The kit of claim 1, wherein thecolor of the portion of the wall is associated with the identity of theanalyte-specific reagent.
 6. The kit of claim 1, wherein the catalystcomprises luciferase.
 7. The kit of claim 1, further comprising a celllysis agent, RNA polymerase, DNA polymerase, or ATP sulfurylase.
 8. Thekit of claim 1, wherein the portion of the wall comprises at least about40 percent of the wall.
 9. The kit of claim 8, wherein the portion ofthe wall comprises at least about 70 percent of the wall.
 10. The kit ofclaim 1, wherein, relative to a similar container that does not comprisethe coloring agent, the container comprising the portion of the wallhaving the coloring agent permits the transmission of at least about 50%or more of the light emitted from the luminescent reaction.
 11. The kitof claim 10 wherein, relative to a similar container that does notcomprise the coloring agent, the container comprising the portion of thewall having the coloring agent permits the transmission of at leastabout 90% or more of the light emitted from the luminescent reaction.